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Porphyromonas gingivalis Search Results

Record: 1 of 1  
MiniMap IGR0063 IGR0066 IGR0062 IGR0064 IGR0065 IGR0067 IGR0069 IGR0068 PG0076 PG0074 PG0078 PG0071 PG0070 sda,sdh, - PG0072 PG0077 melA, - PG0073 PG0069 PG0076 PG0074 PG0078 PG0071 PG0070 sda,sdh, - PG0072 PG0077 melA, - PG0073 PG0069 PG0076 PG0074 PG0078 PG0071 PG0070 sda,sdh, - PG0072 PG0077 melA, - PG0073 PG0069


LANL Gene ID: PG0073

GenBank Locus Tag: PG0085

DNA Molecule Name:
1  

GenBank ID:
34539955

Gene Name:
melA  

Definition:
alpha-galactosidase

Cellular Location:
Cytoplasm, Periplasm [Evidence]

Gene Start:
99312

Gene Stop:
100613

Gene Length:
1302

Molecular Weight*:
48256

pI*:
6.80

Net Charge*:
-1.08

EC:
3.2.1.22  

Functional Class:
Energy metabolism; Biosynthesis and degradation of polysaccharides  

Gene Ontology:
Biological process
  GO:0005975    carbohydrate metabolic process
  GO:0008152    metabolic process

Molecular function
  GO:0003824    catalytic activity
  GO:0004553    hydrolase activity, hydrolyzing O-glycosyl compounds


Pathway: pathway table
Galactose metabolism
Glycerolipid metabolism
Sphingoglycolipid metabolism

Comment:
Most hits are to eukaryotic and plant sequences.

No hits to the first 30 amino acids, and only one protein hit contains a region similar to the amino acid residues 30-60. (start = 99312, stop = 100613). Is this the right start coordinate?

TIGR ID: PG0085

Human Oral Microbiome Database:
View in HOMD Genome Viewer

Blast Summary:  PSI-Blast Search
Several hits in gapped BLAST to alpha-galactosidase sequences, in particular to plant enzymes, e.g. residues 72-407 are 36% similar to residues 64-382 of a putative alpha-galactosidase from Arabadopsis (AL163763). Residues 74-387 are 36% similar to the enzyme from S.coelicolor (AL110470).

Top Blast Hits:  Updated monthly
Click here to view the entire PsiBlast results.
 gi|34539955|ref|NP_904434.1|  alpha-galactosidase [Porphyrom...   871   0.0  
 gi|60683610|ref|YP_213754.1|  putative alpha-galactosidase/m...   270   2e-70
 gi|60680928|ref|YP_211072.1|  putative alpha-galactosidase [...   269   3e-70
 gi|53712778|ref|YP_098770.1|  alpha-galactosidase precursor ...   269   3e-70
 gi|53715671|ref|YP_101663.1|  alpha-galactosidase precursor ...   268   4e-70
 gi|29348474|ref|NP_811977.1|  alpha-galactosidase precursor ...   261   5e-68
 gi|118728373|ref|ZP_01576925.1|  Carbohydrate binding family...   205   5e-51
 gi|110588921|gb|ABG76969.1|  GH27 galactosidase [Clostridium...   203   1e-50
 gi|134103490|ref|YP_001109151.1|  putative alpha-galactosida...   203   2e-50
 gi|118377295|ref|XP_001021827.1|  Melibiase family protein [...   202   3e-50


InterPro Summary:  InterProScan

InterPro
IPR000111
Family
Glycoside hydrolase, clan GH-D
PD002572 [172-355]T 0.0 PD002572 Glyco_hydro_GHD Glyco_hydro_GHD
PF02065 [77-387]T 0.00320000074719642 PF02065 Melibiase Melibiase
InterPro
IPR002241
Family
Glycoside hydrolase, family 27
PR00740 [106-121]T 2.2000000000000002E-27 PR00740 GLHYDRLASE27[147-168]T 2.2000000000000002E-27 PR00740 GLHYDRLASE27[181-198]T 2.2000000000000002E-27 PR00740 GLHYDRLASE27[210-228]T 2.2000000000000002E-27 PR00740 GLHYDRLASE27[309-330]T 2.2000000000000002E-27 PR00740 GLHYDRLASE27 GLHYDRLASE27
InterPro
IPR013785
Domain
Aldolase-type TIM barrel
G3DSA:3.20.20.70 [68-355]T 7.099983251124779E-79 G3DSA:3.20.20.70 Aldolase_TIM Aldolase_TIM
noIPR
unintegrated
unintegrated
PTHR11452 [70-388]T 2.29998420488559E-83 PTHR11452 PTHR11452 PTHR11452
SSF51445 [68-354]T 3.7E-72 SSF51445 SSF51445 SSF51445


COGS Summary:  COGS Search
No hit to the COGs database.
Blocks Summary:  Blocks Search
***** IPB000111 (Alpha-galactosidase) with a combined E-value of 1.1e-24.
    IPB000111B    111-121
    IPB000111C    126-168
    IPB000111D    178-200


 ProDom Summary:  Protein Domain Search
Residues 73-432 are 33% similar to a (ALPHA-GALACTOSIDASE HYDROLASE GLYCOSIDASE PRECURSOR) protein domain (PD002572 which is seen in AGAL_CYATE.


Paralogs:  Local Blast Search
No paralogs found in P. gingivalis.

Pfam Summary:  Pfam Search
Residues 77 to 387 (E-value = 2.8e-06) place PG0073 in the Melibiase family which is described as Melibiase (PF02065)

 Structural Feature(s):
Feature Type  Start  Stop
No predicted structural features.  
  

Top PDB Hits:
-54% similar to PDB:1UAS Crystal structure of rice alpha-galactosidase (E_value = 1.3E_45);
-51% similar to PDB:1R46 Structure of human alpha-galactosidase (E_value = 3.6E_43);
-51% similar to PDB:1R47 Structure of human alpha-galactosidase (E_value = 3.6E_43);
-49% similar to PDB:1KTB The Structure of alpha-N-Acetylgalactosaminidase (E_value = 2.5E_36);
-49% similar to PDB:1KTC The Structure of alpha-N-Acetylgalactosaminidase (E_value = 2.5E_36);

Gene Protein Sequence:
MDREWTFKIPYLGSRPTHWAIKHLPEGFTFDSHEGIIRGKASSRIVFEFE
ISAANESGADSCIWQVEVSRYNGLAPVMGWSTRWLKEKEINEQTILDVAD
AMQSKGLVAAGYNHIIIESHWQTSVRDSDGRIKADPLRFPNGIKHLADEL
HRRGMRLGLSSNASPLNVHGLSGSFEKEAIDAATFSEWGVDFIKYDYCCS
PPISIVAQQRYGAMGRALAATGRPPFFSVCEWGELMPWSWGITVRAGSWR
TSFDIQDKWKAGRYSKRDNGIWDAAMINLRYAQHANRGRAISDPDLLLIG
SPSNGCTAEEYHAQMQMWAMMRAPLVFAADPRSVSAEAVALLTHPDLIAV
DQDASFRNIVEERRADGTHLWTRQLTKGTAVLVVNAGESPTTTSIASRPD
SSSAWDVSRAAYVPPSDLGRIVLSPHAARLFVFE

Gene Nucleotide Sequence:  Sequence Viewer
ATGGATCGTGAATGGACCTTCAAGATACCTTATCTGGGATCACGCCCCAC
GCATTGGGCTATCAAGCATTTGCCCGAAGGATTTACATTCGATTCCCACG
AAGGAATTATTCGCGGTAAGGCTTCTTCTCGCATCGTATTCGAATTTGAA
ATATCAGCAGCCAACGAATCGGGTGCCGACAGTTGCATTTGGCAGGTGGA
AGTGAGTCGGTATAATGGATTGGCTCCCGTTATGGGTTGGAGTACACGTT
GGCTGAAGGAGAAAGAAATAAACGAGCAGACTATTTTGGATGTGGCCGAT
GCGATGCAAAGTAAAGGACTGGTTGCAGCCGGATATAACCATATCATCAT
AGAAAGCCACTGGCAAACGTCCGTACGTGATAGCGACGGGAGAATTAAGG
CGGATCCTTTACGTTTCCCCAATGGGATCAAACATTTGGCCGATGAACTG
CATCGTCGCGGTATGCGGCTCGGCCTTTCCTCCAATGCATCTCCTCTTAA
CGTTCATGGCTTGAGTGGTAGTTTTGAGAAAGAGGCGATAGATGCCGCCA
CATTCTCCGAGTGGGGTGTGGATTTTATCAAATACGACTACTGCTGTTCA
CCGCCTATATCCATCGTTGCGCAGCAACGGTATGGTGCCATGGGGCGCGC
ACTTGCGGCAACGGGACGTCCTCCGTTCTTCTCCGTATGCGAATGGGGTG
AATTGATGCCCTGGTCTTGGGGCATAACGGTGCGTGCCGGCAGTTGGCGT
ACCTCTTTCGACATTCAAGACAAGTGGAAAGCTGGTCGATATTCTAAACG
CGACAATGGTATTTGGGATGCAGCAATGATCAATTTGCGCTACGCTCAGC
ATGCCAATCGTGGCCGCGCGATCTCCGATCCGGATCTGCTATTGATAGGA
AGCCCCTCCAACGGTTGTACAGCGGAAGAATACCATGCACAAATGCAAAT
GTGGGCGATGATGCGCGCTCCGCTGGTCTTTGCTGCCGATCCGCGCTCCG
TATCGGCGGAGGCGGTAGCACTGCTGACGCATCCCGATCTGATTGCAGTC
GATCAGGATGCTTCTTTCCGTAATATCGTGGAGGAACGTCGTGCTGACGG
TACACATTTGTGGACACGTCAGCTGACGAAAGGAACGGCCGTCTTGGTTG
TGAATGCAGGAGAAAGCCCGACGACAACGAGCATCGCTTCACGCCCCGAC
TCATCATCTGCGTGGGACGTATCGCGAGCTGCTTATGTGCCGCCGAGTGA
CTTGGGACGAATCGTCCTGTCGCCGCACGCAGCCCGACTGTTTGTTTTCG
AA

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